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<title>NINJA: Class Members</title>
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   <div id="projectname">NINJA
   &#160;<span id="projectnumber">2.x</span>
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<div class="contents">
<div class="textblock">Here is a list of all class members with links to the classes they belong to:</div>

<h3><a id="index_g"></a>- g -</h3><ul>
<li>gapInTheSequences
: <a class="el" href="class_distance_calculator.html#ae6a08d5f607d2fab97983f956dcee6eb">DistanceCalculator</a>
</li>
<li>GAPS_COUNT_MASK
: <a class="el" href="class_distance_calculator.html#a432c5d8e0379f014219ce28eb81945d5">DistanceCalculator</a>
</li>
<li>getAbort()
: <a class="el" href="class_argument_handler.html#ad6143cf6a96ca5cc6aeb97f432bc629d">ArgumentHandler</a>
</li>
<li>getAlphabetType()
: <a class="el" href="class_argument_handler.html#a8b8d3d08a48c31c010aa80095f85e7cf">ArgumentHandler</a>
</li>
<li>getAlphType()
: <a class="el" href="class_sequence_file_reader.html#a19cd3893e28924779bfcb74a1cece03b">SequenceFileReader</a>
</li>
<li>getBinaryHeapWithMin()
: <a class="el" href="class_array_heap_ext_mem.html#ae2586a4b61b0cda1447748fb0e0083d0">ArrayHeapExtMem</a>
</li>
<li>getCorrectionType()
: <a class="el" href="class_argument_handler.html#ad2b8028126c07aabb8603c44594ffaa6">ArgumentHandler</a>
</li>
<li>getInputFile()
: <a class="el" href="class_argument_handler.html#ad651123ca891c60ec98111817e38b06a">ArgumentHandler</a>
</li>
<li>getInputType()
: <a class="el" href="class_argument_handler.html#a32c069acf9792739ceb10c87edf22ddc">ArgumentHandler</a>
</li>
<li>getInverseAlphabet()
: <a class="el" href="class_distance_calculator.html#a852203aaa2f7eb7faf53cc52245244f1">DistanceCalculator</a>
</li>
<li>getMethod()
: <a class="el" href="class_argument_handler.html#ac6b6ce1eb3d6fee43314823c8c3e9e6c">ArgumentHandler</a>
</li>
<li>getNames()
: <a class="el" href="class_sequence_file_reader.html#a90a7fe721e3311573775ab8f7c946ec9">SequenceFileReader</a>
</li>
<li>getNJTmpDir()
: <a class="el" href="class_argument_handler.html#a242123ae240bca20b782c544416e2fc3">ArgumentHandler</a>
</li>
<li>getNumThreads()
: <a class="el" href="class_argument_handler.html#a56ce7d11969a9efb741fa10fc14deed2">ArgumentHandler</a>
</li>
<li>getOutputFile()
: <a class="el" href="class_argument_handler.html#a1c8fbd4a0c2b3d4235c3ef8b83fd43b8">ArgumentHandler</a>
</li>
<li>getOutputType()
: <a class="el" href="class_argument_handler.html#ab0837386ce1c1f76280c9917572989dc">ArgumentHandler</a>
</li>
<li>getSeqs()
: <a class="el" href="class_sequence_file_reader.html#ac6ddf2c86a6e8c25f21d9e1381cb08ce">SequenceFileReader</a>
</li>
<li>getUseSSE()
: <a class="el" href="class_argument_handler.html#a817493c9c676890ac210e1384191828c">ArgumentHandler</a>
</li>
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